>input_sequence_87249
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-------------------------------------------------------------------------ATGAATT
TCATAGTAATAGAAATCCATGTCCTACCGAGACAGAATTTAGAACTTGCTATCCTCTTGCCTAATAGGCAAAGATTGACC
TCTGTAGAAAGACTGATTCATTCGGATCGATATGAGGACCCAACTCCGTTGCATTGCCAGAATCCATGTTCCATATTTGA
AGCGGGTTGA----------------------------------------------------------------------
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>chr1D_1_TraesCS1D01G084300
AAAGAATTTCTTGAGATGGAAGTATAGATATAGAGGTAGGAATTTGTCGAACGATCCACACTCCTTCGTAGACGTCAGGA
GTCCATTGATGAAAAGGGGCTGGGGAAAGCTTAAACCCAAGTCCTACAGTGATGGAATTTCTTTTTTTCTATTTCCCATT
ATTAGATAGTGGGCATAAATCTCATGATAAGTCCCCAAAGATTCATATTGAACTTCAATCGGAACTTCTCTTGACCCAAT
GACGCGTTGATCCAGGTTCCATCGTAGCCACAAGGGACTATCTAAACTGATTAGTTTTTGTTTATAAGCTCCCAGTGCAT
CATAAGAACTAGAAAAATGGGGTTCTTTATCTTTCCTATATTTAGAATTATTATTATTGCTTTTCAATGGCTTCTCTTGC
CTTACCAGGAATGAGTGGTTTTGTCGCAGAATTAGTAGTATTTTTTGGACTAATTACTAGTCCAAAATTTCTGTTAATGC
CAAAAACACTAATTACTTTTGTAATGGCAATTGGAATGATATTAACTCCTATTTATTTATTATCTATGTTACGCCAGATG
TTCTATGGATACAAGCTATTTAATGTTCCAAACGCAAATTTTGTGGATTCTGGACCACGAGAACTCTTTATTTTAATCTG
TAAGATTAATACTTCAAGTTGCTGAGTTGAGAAAGAGATGGTTGAATCAAAAGAATTCCTTTTTTGAAGTTCAATTTTTA
TCAGAGGACAATATGAATATTATACCTTGTTCCATTAAAACACTCAAGGGGTTATACGATATATCGGGTGTAAAGATTTA
ATTTCATTTCTTCGATTTGT---------------------------------TCTCCTCTTCTAAGGTTATAGCTTTCG
TGCTAGCTTCATCGATGTTACCCACCAAATAAAAAGCCTGTTCAGGTAGGCCGTCTAATTCTCCGGAAAGGATTAGTTGA
AATCCCCTAATAGTTTCCGCAAGAGAGAAAAAGGATAATGGTAGCCCTCCCATTAACTACTTCATTTTCATTTATGAATT
TCATAGTAATAGAAATCCATGTCCTACCGAGACAGAATTTAGAACTTGCTATCCTCTTGCCTAATAGGCAAAGATTGACC
TCTGTAGAAAGACTGATTCATTCGGATCGATATGAGGACCCAACTCCGTTGCATTGCCAGAATCCATGTTCCATATTTGA
AGCGGGTTGACCTCTGTGCTTCTCTCATGGTACAATCCTCTTCCCGCTGAGCCCCCTTTCTCCTCGGTCCACAGAGAAAA
AAATGTAGGACTGCATTCTAAATATCTATAAAAAAGATATGTTTCTTTCTCTTGTTTGAGAGAGCTTTTGTGTTGAAAAT
ATTCTTACTATTATTGTATTATCTTATTTATAGTGAAACAAATGATATACTTAAGGCATCCTTAAGT-------------
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---------------------------------------TTTTTATTTTTATATTCCGATGAAAACTTTAGTTCTTATAA
ATGATTAAATCCTTTTCCTCTCAATAGCATATTGAGGAAGAATATACATTCTGGCGATTTGTATCCAAAGACTA------
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--------------------------------------------------------------------ATTTAAATTGCA
TCCAAAATAAAAATAGGATTATGAGTACAGAGTCGCGAAGCATAATTTTGCATTGGATT---------------------
-------------------------------------------------------AAGTATTCCAA--------------
-----------------------TTTTGAAAATATGAGTAAAGGATCTATGGATGAAGATACAAAAAAGTTGATTTCCAA
TCGTAACTAAATCTTCTTAAAATAAGGAATAAGGAAGCCAAATAGCTAAAAAACGATAGTTTTGGTTTACTAGAACCATC
CGGTTTAAGAGTATAGAGCAGTTTGGTAGCTCATAAGGCTCATAACCTTGGGGTTGCGGGTTCGATTCCCACTACCGGCT
CCATACTCCTTCTTTATGATATATGCATGATATAATATATACATCATGCATTTGTATCTGGATTTTTTGATTTCCTAAAA
GAGTTTTGGTCTAACAGTTTTTTCTCGGAAGAAGCAAAAAAATAAAAGAAAGAATAAAATATGAAAGAAAAGCGTCCGTT
GTCTAATGGATAGGACAGAGGTCTTCTAAACCTTTGGTATAGGTTCAAATCCTATTGGACGCAATCTTATTTCTATCTAT
TCTTT----AAATAACTATACTAAACTAAAAACAAAGAAAACTTTTGCTTTCTT--------------------------
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--------------------------------------------------TTCCTCTGGCTACTAAGATGTTTCAGTTCG
CCAGGTTGTCTCTTGCCTGCTCATGGATTCAGCAGGCAGTTTAAAAGGT-------------------------------
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>chr5D_641
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TAAGATTAATACTTCAAGTTGCTGAGTTGAGAAAGAGATGGTTGAATCAAAAGAATTCCTTTTTTGAAGTTCAATTTTTA
TCAGAGGACAATATGAATATTATACCTTGTTCCATTAAAACACTCAAGGGGTTATACGATATATCGGGTGTAGAAGTAGG
CCAACACTTCTATTGGCAAATAGGAGGTTTCCAAATTCATGCCCAAGTACTCATCACTTCTTGGGTCGTAATTACTATCT
TGCTAGGTTCAGTTG-----------------------------------------------------------------
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TCATAGCTGTT---------------------------------------------------------------------
---------------------------------------------------------CGGAATCCACAAACCATCCCGAC
CGACGGTCAGAA--------------------------------------------------------------------
-------------------------------------------------------------------TTTTTTTGAATAT
GTCCTTGAGTTTATTCGAGACTTGAGCAAAACTC----------------------------------------------
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--------------------------------------------------------------------AGATTGGAGAAG
AATATGGTCCCTGGGTTCCCTTTATTGGAACTATGTTCCTTTTTATTTTTGTATAG------------------------
-------------------------------------------------------------------------A------
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--------------------------------------------------------------------ATTTTTTTTGCA
TAGAAAAAAGAAGGGGAATATTGATATATATTAGAGGGTATTGATATATATTATGATCTGATGTGCTTTCTTGGTATCCT
AAATATAAGATTAATACTTCAAGTTGCTGAGTTGAGAAAGAGATGGTTGAATCAAAAGAATTCCTT--------------
-----------------------TTTTGAAGTTCAATTTTTATC------------------------------------
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--------------------------------------------------AGAGGACAATATGAATATTATACCTTGTTC
CATT----------------------------------------------------------------------------
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---------AAAACACTCAAGGGGTTATACGATATATCGGGTGTAGAAG-------------------------------
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>chr5D_953
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-------------------------AGAAAAAGGATAACGGTAGCCCTCCCATTAACTACTTCATTTTCATTTATGAATT
TCATAGTAATAGAAATCCATGTCCTACCGAGACAGAATTTAGAACTTGCTATCCTCTTGCCTAATAGGCAAAGATTGACC
TCTGTAGAAAGACTGATTCATTCGGATCGATATGAGGACCCAACTCCGTTGCATTGCCAGAATCCATGTTCCATATTTGA
AGCGGGTTGACCTCTGTGCTTCTCTCATGGTACAATCCTCTTCCTGCTGAGCCCCCTTTCTCCTCGGTCCACAGAGAAAA
AAATGTAGGACTGGTGCCGACAGTTCATCACGGAAGAAAGAACTCACAGAGCCGGGATCGGTAACTAATAGTACTACTAA
CTAATACTAATATATAGAAATAGATATCTAGAAATAGAAATGAACTAATATATAGATAATCGAAATTGAAAAGAACTGTC
TTTTCTGTATACTTTCCCCGTTCTATTGCTACCGCGGGTCTTATGCAATCGATCGGAGCATATAGATATCCCTTCAACAC
AACATAGGTCATCGAAAAGATCTCGGACGACTCACCAAAGCACGAAAGCCAGTTAGAAAATGGATTCCTATTTGAAGAGT
GCCTAACCGCATGGATAAGCTCACATTAACCCGTCAATTTTGGATCCAATTCGGGATTTTTCTTGGGAAGTTTCGGGAAG
AAATTGGAAT----------------------------------------------------------------------
-----------------------------------GGAATAATATAGATTCATACAGAGGAAAAGGTTCTCTATTGATGC
AAACGCTGTACCTAGAGGATAGGGATAGAGGAAGAGGGAAAAATCGAAATGAAATAAATAAAGAATAAAGCCAAAAAAAT
AAGTCGAAGATAGAAGAGCCCAGATTCCAAATGAAGAAATGGAAACTCGAAAAGGATCCTTCGGATTCTCAAAGAATGAG
GGGCAAGGGGATTGATACCGAGAAAGATTTCTTCTTATTATAAGACGTGATTTGATCTGCATATGTTTGGTAAAAGAACA
ATCTTCTCCTTTAATCATATCATAAATGGAAAGTGTTCAATTAGAACATGAAAACGTGACTCAATTGGTCTTAGTTAGTC
TTCGGGACGGAGTGGAAGAAGGGCGGAGACTCTCGAACGAGGAAAAGGATCCCTTCGAAAGAATTGACCGAGGAGCCGTA
TGAGGTGAAAATCTCATGTACGGTTCTGTAAAGGGACAGTAAGGGTGACTTATCTGTCGACTTTTCCACTATCAACCCCA
AAAAACCCAACTGTGCCTTACGTAAAGTTGCCAGAGTACGATTAACCTCTGGATTTGAAATCACTGCTTATATACCTGGT
ATTGGCCATAATTTACAAGAACATTCTGTAGTATTAGTAAGAGGAGGAAGGGTTAAGGATTTACCCGGTGTGAGATATCG
CATTATTCGAGGAACCCTAGATGCTGTCGCAGTAAAGAATCGTCAACAAGGGCGTTCTAGTGCGTTGTAGATTCTTATCC
AAGACTTGTATCATTTGATGATGCCATGTGAATCGCTAGAAACATGTGAAGTGTATGGCTAACCCAATAACGAAAGTTTC
GTAAGGGGACTGGAGCAGGCTACCATGAGACAAAAGATCCTCTTTCTAAAGAGATTCGATTCGGAACTCTTATATGTCCA
AGGTCAATATGGAAATTCTTTCAGAGGTTTTCCCTTACTTTGTCCGTGTCAACAAACAATTCGAAATACCTCGACTTTTT
CAGAACAGGTCCGAGTCAAATAGCAATGATTCGAAGCACTTCTTTTTCCATTACACTATTTCGGAAACCTAATGACTCGA
TCGTATGGATATGGAAAATACAGGATTTCCGATCCTAGCGGGAAAAGGAGGGAAACGGATACTCAATTTAAAGTGAGTAA
ACAGAATTCCATACTCGATCTCATAGATCCCTATAGAATTCTGTGGAAAGCCGTATTCGATGAAAGTCGTATGTACGGCT
TGGAGGGAGATCTTTCCTATCTTTCGAGATCCACCCTACAATATGGGGTCAAAAAGCCAAAAAAATAAGTGATTTTAGCC
CTTATAAAAAGAAAACGGATTCTTGAACCTCTTTCACGCTCATGTCACGTCGAGGTACTGCAGAAAAAAGAACTGCAAAA
TCCGATCCAATTTTTCGTAATCGATTAGTTAACATGGTGGTTAACCCTATTATGAAAGACGGAAAAAAATCATTGGCTTA
TCAAATTCTCTATCGAGCCGTGAAAAAGATTCAACAAAAGACAGAAACAAATCCACTATTGGTTTTACGTCAAGCAATAC
GTAGAGTAACTCCCAATATAGGAGTAAAAACAAGACGTAATAAAAAAGGATCGACGCGGAAAGTTCCGATTGAAATAGGA
TCTAAACAAGGAAGAGCACTTGCCATTCGTTGGTTATTAGAAGCATCCCAAAAGCGTCCGGGTCGAAATATGGCTTTCAA
ATTAAGTTCCGAATTAGTAGATGCTGCCAAAGGGAGTGGGGGTGCCATACGCAAAAAGGAAGCGACTCAGAGAATGGCAG
AGGCAAATAGAGCTCTTGCACATTTTCGTTAATCCATGAACAGAATCTATGTATGTAGACACATGGATCCGTACATCTCG
ATCGGAAAAGAATCAATAGAAGGAGAATCGGACGATA-------------------------------------------
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------------------TCTTTCTCGAAACAAACAAAAAGGAAAAGAAAGAGAAAACAGAAATCATGATCAACTAAGCC
CTCTCGAGGGCTTGCTTAAGAATAAGAAAGAAGAATCTTATGGAAATAGCATGGAATAAGGTTTGATCCTATTCATGGGG
ATTCCGTAAATATCCCATTTCAAAAATCAAAACAATCGGGACTTTTCGGAGATTCCCTCTGCCCCTACCGTACTCCAGCT
TGGTAGTTTCCACCGCCTGTCCAGGGTTGAGCCCTGGGATTTGACGGCGGACTTGAAAAGCCACCTACAGACGCTTTACG
CCCAATCATTCCGGATAACGCTTGCATCCTCTGTCTTACCGCGGCTGCTGGCACAGAGTTAGCCGATGCTTATTCCTCAG
ATACCGTCATTGTTTCTTCTCCGAGAAAAGAAGTTGACGACCCGTAGGCCTTCCACCTCCACGCGGCATTGCTCCGTCAG
GATTTCGCCCATTGCGGAAAATTCCCCACTGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAGTGTGGCTGAT
CATCCTCTCGGACCAGCTACTGATCATCGCCTTGGTAAGCTATTACCTCACCAACTAGCTAATCAGACGCGAGCCCCTCC
TTGGGCGGATTTCTCCTTTTGCTCCTCAGCCTACGGGGTATTAGCAACCGTTTCCAGTTGTTGTTCCCCTCCCAAGGGCA
GGTTCTTACGCGTTACTCACCCGTTCGCCACTGGAAACACCACTTCCCGTTCGACATACATGTGTTAAGCATGCCGCCAG
CGTTCATCCTAAGCCAGGATCAAACTCTCCATGAGATTCATAGTTGCATTACTTATAGCTTCCTTATTCGTAGACAAAGC
AGATTCGGAATTGTCTTTCCTTCCAAGGATAACTTGTATCCATGCGCTTCAGATTATTAGCCTGGAGTTCGCCACCAGCA
GTATAGCCAACCCTACCCTATCACGTCAATCCCACAAGCCTCTTATCCATTCCCGTTCGCTCGTGGCGGGGGAGTAAGTC
AAAATAGAAAAAACTCACATTGGGTTTAGGGATAATCAGGCTCGAACTGATGACTTCCACCACGTCAAGGTGACACTCTA
CCGCTGAGTTATATCCCTTCCCCGTCCCATCGAGAAAGAGAATTAACGAATCCTAAGGCAAAGGGGCGAGAAACTCAAGG
CCACTCTTCCTCCGGGCTTTCTTTCCGCACTATTATGGATAGTCAAATAATGGGAAAAATTGGATTCAATTGTCAACTGG
TCCTATCGAAAGTAGGATTGACTATGGATTCGAGCCATCGCACATGGTTTCATAAAATCTGTACGATTTTCCCGATCTAA
TCGAGCAGGTTTCCATGAAGAAGATCTTGTTCAGCATGTTCTATTCGATACTGGTAGGAGAAGAACCCGACTCGGTATTC
TTAAAAAAAGAGGGGAAGCAGAACCAAGTCAAGATGATATGGGTCGCCCCTTCTTCTTGCGCCAAAGATCTTACCATTTC
CGAAGGAACTGGGGCTACATTTCTTTTCAATTTCCATTCAAGAGTTTCTATCTGTTTCCACGCCCTTTTCTTGAGACCTC
GAAACATGAGGACAAATTACTTCTCTTAGGAACACATACAAGAAAAAGGATAACGGTAGCCCTCCCATTAACTACTTCAT
TTTCATTTATGAATTTCATAGTAATAGAAATCCATGTCCTACCGAGACAGAATTTAGAACTTGCTATCCTCTTGCCTAAT
AGGCAAAGATTGACCTCTGTAGAAAGACTGATTCATTCGGATCGATATGAGGACCCAACTCCGTTGCATTGCCAGAATCC
ATGTTCCATATTTGAAGCGGGTTGACCTCTGTGCTTCTCTCATGGTACAATCCTCTTCCTGCTGAGCCCCCTTTCTCCTC
GGTCCACAGAGAAAAAAATGTAGGACTG
>SNPs
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
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------------------------------------------------------------------------S-SS-SSS
SSSS--S----SSSSSSSSS-----------------------------------S-S----SSSSS--S--SS--S--S
------S----SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSS-------------S-----------------------------------------
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--------------------------------------------S-----------------------------------
-------------SSSS-S-S-SS--SSS-SSS----S-SSSS--SSSSSSSS-SSSSS-SS-S--S--S-S-----S--
S-S---SSS------SS-SSS-SS---S--S-SSS-S-S-SSSSS--SSS-SS--SS-SS-SS--S--------------
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--------------------------------------------------S---SSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS----S------S----SSS-SSSSSSS-SSSSSSSSSS-------
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--S----S-S---S--S---S---S-S-SSS-SSSS-S--S-S----S-SS-S---SS----------------------
----------------------------------------------------------S------S--------------
---------------------------------SSSS---S--S-------S---S---S---SSS-SSSSS-SS--SSS
SSSSS-SS-S-SSSSS-SS--SS-SSSSSSS-S--SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSS-S-------S--S--S------SSS---SS------S-----------SS--SS-S-SS--S
S---SSS--SSSS-SSSS--SSSSSSS--SSSSSSSS-SSS--SSSS-SSSSSSSSSS-S-SSSSS-SS-S-SS--SSSS
SS-SS-----S--SS-SS-S-S---S-S-------SSSSS------SSSSSS----------------------------
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-----------------------------------------------------S---S--SS-S-----S--S-SS--SS
-S-S-SSSSSSSSSSSSSSS-SS-SSSSSSSSSSSSSSSSSS-SSSSS--------------------------------
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>forward_257
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-----------------------------------------------------------------------------AAT
GACGCGTTGATCCAGGT---------------------------------------------------------------
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>reverse_3826
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-----------------------------------------------------------------TTCCCACTACCGGCT
CCATA---------------------------------------------------------------------------
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